Have seen a number of original "teal" colored pumps with painted handles as well as a shadow on the neck to indicate that the dipstick was in place at the time it painted. Plenty of service replacements that duplicate the practice also
I don't believe I've ever deducted for this detail, yet, only left notes sharing the info, Since you didn't mention what venue you were entered in I'm unsure of which show it was deducted for.
You will likely always get some differing opinions (though we are working to smooth most of them out) I always suggest that owners listen to opinions from those that will be passing judgment on. I know we changed a couple of items on our car before it want to SAAC even though I disagreed and changed them back after the show and before any magazines got to shot the car.